konect logo
KONECT
KONECT > Networks > Protein

Protein

About this network

This undirected network contains protein interactions contained in yeast. Research showed that proteins with a high degree were more important for the surivial of the yeast than others. A node represents a protein and an edge represents a metabolic interaction between two proteins. The network contains loops.

Network info

CodeMp
Category Metabolic
Data source http://moreno.ss.uci.edu/data.html#pro-pro
Vertex type Protein
Edge type Interaction
FormatUndirected: Edges are undirected Undirected
Edge weightsUnweighted: Simple edges Unweighted
Metadata Loops:  An edge may connect a node with itself Loop
Size1,870 vertices (proteins)
Volume2,277 edges (interactions)
Average degree2.4353 edges / vertex
Fill0.0013016 edges / vertex2
Maximum degree56 edges
Size of LCC1,458 vertices
Wedge count12,107
Claw count75,064
Triangle count222
Square count461
4-tour count56,522
Power law exponent (estimated) with dmin3.0410 (dmin = 5)
Gini coefficient44.9%
Relative edge distribution entropy94.3%
Assortativity–0.16153
Clustering coefficient5.50%
Diameter19 edges
90-percentile effective diameter9.59 edges
Mean shortest path length7.07 edges
Spectral norm7.5619
Algebraic connectivity0.021259
Degree distribution of the Protein network
Degree distribution
Degree distribution of the Protein network
Degree distribution
Degree distribution of the Protein network
Degree distribution
Clustering coefficient distribution of the Protein network
Clustering coefficient distribution
Distance distribution of the Protein network
Distance distribution
Distance distribution on a logistic scale of the Protein network
Distance distribution on a logistic scale
Top-k eigenvalues of A of the Protein network
Top-k eigenvalues of A
Top-k eigenvalues of N of the Protein network
Top-k eigenvalues of N
Top-k eigenvalues of L of the Protein network
Top-k eigenvalues of L
Spectral distribution of the eigenvalues of A of the Protein network
Spectral distribution of the eigenvalues of A
Spectral distribution of the eigenvalues of N of the Protein network
Spectral distribution of the eigenvalues of N
Spectral distribution of the eigenvalues of L of the Protein network
Spectral distribution of the eigenvalues of L
Cumulative spectral distribution of A of the Protein network
Cumulative spectral distribution of A
Cumulative spectral distribution of N of the Protein network
Cumulative spectral distribution of N
Cumulative spectral distribution of L of the Protein network
Cumulative spectral distribution of L
Eigenvectors of A of the Protein network
Eigenvectors of A
Eigenvectors of L of the Protein network
Eigenvectors of L

Layout

Layout of the Protein network
Layout

Downloads

TSV file:downloadmoreno_propro.tar.bz2 (9.00 KiB)
Extraction code:downloadmoreno.tar.bz2 (21.10 KiB)

References

[1] Protein network dataset -- KONECT, April 2017. [ http ]
[2] Stéphane Coulomb, Michel Bauer, Denis Bernard, and Marie-Claude Marsolier-Kergoat. Gene essentiality and the topology of protein interaction networks. Proceedings of the Royal Society B: Biological Sciences, 272(1573):1721--1725, 2005.
[3] Jing-Dong J Han, Denis Dupuy, Nicolas Bertin, Michael E Cusick, and Marc Vidal. Effect of sampling on topology predictions of protein-protein interaction networks. Nature Biotechnology, 23(7):839--844, 2005.
[4] Michael PH Stumpf, Carsten Wiuf, and Robert M May. Subnets of scale-free networks are not scale-free: Sampling properties of networks. Proceedings of the National Academy of Sciences of the United States of America, 102(12):4221--4224, 2005.

BibTeX